data_8I3Z # _entry.id 8I3Z # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8I3Z pdb_00008i3z 10.2210/pdb8i3z/pdb WWPDB D_1300034888 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2023-03-22 2 'Structure model' 1 1 2023-04-19 3 'Structure model' 1 2 2024-05-29 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8I3Z _pdbx_database_status.recvd_initial_deposition_date 2023-01-18 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 2 huanglin36@mail.sysu.edu.cn Lin Huang ? 'principal investigator/group leader' 0000-0002-2121-365X 3 d.m.j.lilley@dundee.ac.uk David Lilley M.J 'principal investigator/group leader' 0000-0001-6882-2818 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Peng, X.' 1 ? 'Lilley, D.M.J.' 2 ? 'Huang, L.' 3 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 51 _citation.language ? _citation.page_first 2904 _citation.page_last 2914 _citation.title 'Crystal structures of the NAD+-II riboswitch reveal two distinct ligand-binding pockets.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkad102 _citation.pdbx_database_id_PubMed 36840714 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Peng, X.' 1 ? primary 'Liao, W.' 2 0000-0001-9823-9949 primary 'Lin, X.' 3 ? primary 'Lilley, D.M.J.' 4 0000-0001-6882-2818 primary 'Huang, L.' 5 0000-0002-2121-365X # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA (5'-R(*AP*GP*AP*GP*CP*GP*UP*UP*GP*CP*GP*UP*CP*CP*GP*AP*AP*AP*GP*UP*(CBV)P*GP*CP*C)-3') ; 7802.550 1 ? ? ? ? 2 polymer syn 'RNA (31-MER)' 10036.118 1 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 4 ? ? ? ? 4 non-polymer syn 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' 335.227 2 ? ? ? ? 5 water nat water 18.015 146 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no yes 'AGAGCGUUGCGUCCGAAAGU(CBV)GCC' AGAGCGUUGCGUCCGAAAGUCGCC A ? 2 polyribonucleotide no no GCGACACGGCUCUUUAAAAACAAAAGGAGAA GCGACACGGCUCUUUAAAAACAAAAGGAGAA B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'SODIUM ION' NA 4 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' NMN 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 G n 1 3 A n 1 4 G n 1 5 C n 1 6 G n 1 7 U n 1 8 U n 1 9 G n 1 10 C n 1 11 G n 1 12 U n 1 13 C n 1 14 C n 1 15 G n 1 16 A n 1 17 A n 1 18 A n 1 19 G n 1 20 U n 1 21 CBV n 1 22 G n 1 23 C n 1 24 C n 2 1 G n 2 2 C n 2 3 G n 2 4 A n 2 5 C n 2 6 A n 2 7 C n 2 8 G n 2 9 G n 2 10 C n 2 11 U n 2 12 C n 2 13 U n 2 14 U n 2 15 U n 2 16 A n 2 17 A n 2 18 A n 2 19 A n 2 20 A n 2 21 C n 2 22 A n 2 23 A n 2 24 A n 2 25 A n 2 26 G n 2 27 G n 2 28 A n 2 29 G n 2 30 A n 2 31 A n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 24 'Streptococcus parasanguinis' ? 1318 ? 2 1 sample 1 31 'Streptococcus parasanguinis' ? 1318 ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CBV 'RNA linking' n ;5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) ; ? 'C9 H13 Br N3 O8 P' 402.093 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 NMN non-polymer . 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' 'NICOTINAMIDE MONONUCLEOTIDE' 'C11 H16 N2 O8 P 1' 335.227 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 A 1 1 1 A A A . n A 1 2 G 2 2 2 G G A . n A 1 3 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 G 6 6 6 G G A . n A 1 7 U 7 7 7 U U A . n A 1 8 U 8 8 8 U U A . n A 1 9 G 9 9 9 G G A . n A 1 10 C 10 10 10 C C A . n A 1 11 G 11 11 11 G G A . n A 1 12 U 12 12 12 U U A . n A 1 13 C 13 13 13 C C A . n A 1 14 C 14 14 14 C C A . n A 1 15 G 15 15 15 G G A . n A 1 16 A 16 16 16 A A A . n A 1 17 A 17 17 17 A A A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 U 20 20 20 U U A . n A 1 21 CBV 21 21 21 CBV CBV A . n A 1 22 G 22 22 22 G G A . n A 1 23 C 23 23 23 C C A . n A 1 24 C 24 24 24 C C A . n B 2 1 G 1 26 26 G G B . n B 2 2 C 2 27 27 C C B . n B 2 3 G 3 28 28 G G B . n B 2 4 A 4 29 29 A A B . n B 2 5 C 5 30 30 C C B . n B 2 6 A 6 31 31 A A B . n B 2 7 C 7 32 32 C C B . n B 2 8 G 8 33 33 G G B . n B 2 9 G 9 34 34 G G B . n B 2 10 C 10 35 35 C C B . n B 2 11 U 11 36 36 U U B . n B 2 12 C 12 37 37 C C B . n B 2 13 U 13 38 38 U U B . n B 2 14 U 14 39 39 U U B . n B 2 15 U 15 40 40 U U B . n B 2 16 A 16 41 41 A A B . n B 2 17 A 17 42 42 A A B . n B 2 18 A 18 43 43 A A B . n B 2 19 A 19 44 44 A A B . n B 2 20 A 20 45 45 A A B . n B 2 21 C 21 46 46 C C B . n B 2 22 A 22 47 47 A A B . n B 2 23 A 23 48 48 A A B . n B 2 24 A 24 49 49 A A B . n B 2 25 A 25 50 50 A A B . n B 2 26 G 26 51 51 G G B . n B 2 27 G 27 52 52 G G B . n B 2 28 A 28 53 53 A A B . n B 2 29 G 29 54 54 G G B . n B 2 30 A 30 55 55 A A B . n B 2 31 A 31 56 56 A A B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 NA 1 101 3 NA NA A . D 4 NMN 1 101 101 NMN NMN B . E 4 NMN 1 102 102 NMN NMN B . F 3 NA 1 103 1 NA NA B . G 3 NA 1 104 2 NA NA B . H 3 NA 1 105 4 NA NA B . I 5 HOH 1 201 104 HOH HOH A . I 5 HOH 2 202 86 HOH HOH A . I 5 HOH 3 203 87 HOH HOH A . I 5 HOH 4 204 9 HOH HOH A . I 5 HOH 5 205 92 HOH HOH A . I 5 HOH 6 206 78 HOH HOH A . I 5 HOH 7 207 67 HOH HOH A . I 5 HOH 8 208 32 HOH HOH A . I 5 HOH 9 209 42 HOH HOH A . I 5 HOH 10 210 72 HOH HOH A . I 5 HOH 11 211 55 HOH HOH A . I 5 HOH 12 212 44 HOH HOH A . I 5 HOH 13 213 5 HOH HOH A . I 5 HOH 14 214 28 HOH HOH A . I 5 HOH 15 215 75 HOH HOH A . I 5 HOH 16 216 8 HOH HOH A . I 5 HOH 17 217 46 HOH HOH A . I 5 HOH 18 218 89 HOH HOH A . I 5 HOH 19 219 114 HOH HOH A . I 5 HOH 20 220 79 HOH HOH A . I 5 HOH 21 221 62 HOH HOH A . I 5 HOH 22 222 19 HOH HOH A . I 5 HOH 23 223 74 HOH HOH A . I 5 HOH 24 224 58 HOH HOH A . I 5 HOH 25 225 1 HOH HOH A . I 5 HOH 26 226 10 HOH HOH A . I 5 HOH 27 227 29 HOH HOH A . I 5 HOH 28 228 38 HOH HOH A . I 5 HOH 29 229 77 HOH HOH A . I 5 HOH 30 230 53 HOH HOH A . I 5 HOH 31 231 130 HOH HOH A . I 5 HOH 32 232 15 HOH HOH A . I 5 HOH 33 233 122 HOH HOH A . I 5 HOH 34 234 12 HOH HOH A . I 5 HOH 35 235 2 HOH HOH A . I 5 HOH 36 236 54 HOH HOH A . I 5 HOH 37 237 60 HOH HOH A . I 5 HOH 38 238 17 HOH HOH A . I 5 HOH 39 239 64 HOH HOH A . I 5 HOH 40 240 61 HOH HOH A . I 5 HOH 41 241 76 HOH HOH A . I 5 HOH 42 242 126 HOH HOH A . I 5 HOH 43 243 59 HOH HOH A . I 5 HOH 44 244 48 HOH HOH A . I 5 HOH 45 245 23 HOH HOH A . I 5 HOH 46 246 115 HOH HOH A . I 5 HOH 47 247 4 HOH HOH A . I 5 HOH 48 248 98 HOH HOH A . I 5 HOH 49 249 34 HOH HOH A . I 5 HOH 50 250 101 HOH HOH A . I 5 HOH 51 251 135 HOH HOH A . I 5 HOH 52 252 145 HOH HOH A . I 5 HOH 53 253 56 HOH HOH A . I 5 HOH 54 254 36 HOH HOH A . I 5 HOH 55 255 133 HOH HOH A . I 5 HOH 56 256 6 HOH HOH A . I 5 HOH 57 257 27 HOH HOH A . I 5 HOH 58 258 81 HOH HOH A . I 5 HOH 59 259 102 HOH HOH A . I 5 HOH 60 260 82 HOH HOH A . J 5 HOH 1 201 105 HOH HOH B . J 5 HOH 2 202 113 HOH HOH B . J 5 HOH 3 203 71 HOH HOH B . J 5 HOH 4 204 73 HOH HOH B . J 5 HOH 5 205 94 HOH HOH B . J 5 HOH 6 206 142 HOH HOH B . J 5 HOH 7 207 68 HOH HOH B . J 5 HOH 8 208 90 HOH HOH B . J 5 HOH 9 209 123 HOH HOH B . J 5 HOH 10 210 136 HOH HOH B . J 5 HOH 11 211 117 HOH HOH B . J 5 HOH 12 212 31 HOH HOH B . J 5 HOH 13 213 35 HOH HOH B . J 5 HOH 14 214 112 HOH HOH B . J 5 HOH 15 215 134 HOH HOH B . J 5 HOH 16 216 11 HOH HOH B . J 5 HOH 17 217 120 HOH HOH B . J 5 HOH 18 218 16 HOH HOH B . J 5 HOH 19 219 20 HOH HOH B . J 5 HOH 20 220 33 HOH HOH B . J 5 HOH 21 221 69 HOH HOH B . J 5 HOH 22 222 47 HOH HOH B . J 5 HOH 23 223 80 HOH HOH B . J 5 HOH 24 224 88 HOH HOH B . J 5 HOH 25 225 140 HOH HOH B . J 5 HOH 26 226 18 HOH HOH B . J 5 HOH 27 227 128 HOH HOH B . J 5 HOH 28 228 107 HOH HOH B . J 5 HOH 29 229 100 HOH HOH B . J 5 HOH 30 230 65 HOH HOH B . J 5 HOH 31 231 111 HOH HOH B . J 5 HOH 32 232 7 HOH HOH B . J 5 HOH 33 233 121 HOH HOH B . J 5 HOH 34 234 103 HOH HOH B . J 5 HOH 35 235 21 HOH HOH B . J 5 HOH 36 236 106 HOH HOH B . J 5 HOH 37 237 66 HOH HOH B . J 5 HOH 38 238 85 HOH HOH B . J 5 HOH 39 239 13 HOH HOH B . J 5 HOH 40 240 30 HOH HOH B . J 5 HOH 41 241 52 HOH HOH B . J 5 HOH 42 242 49 HOH HOH B . J 5 HOH 43 243 139 HOH HOH B . J 5 HOH 44 244 63 HOH HOH B . J 5 HOH 45 245 127 HOH HOH B . J 5 HOH 46 246 110 HOH HOH B . J 5 HOH 47 247 118 HOH HOH B . J 5 HOH 48 248 96 HOH HOH B . J 5 HOH 49 249 70 HOH HOH B . J 5 HOH 50 250 25 HOH HOH B . J 5 HOH 51 251 125 HOH HOH B . J 5 HOH 52 252 41 HOH HOH B . J 5 HOH 53 253 50 HOH HOH B . J 5 HOH 54 254 109 HOH HOH B . J 5 HOH 55 255 93 HOH HOH B . J 5 HOH 56 256 39 HOH HOH B . J 5 HOH 57 257 40 HOH HOH B . J 5 HOH 58 258 3 HOH HOH B . J 5 HOH 59 259 108 HOH HOH B . J 5 HOH 60 260 116 HOH HOH B . J 5 HOH 61 261 129 HOH HOH B . J 5 HOH 62 262 14 HOH HOH B . J 5 HOH 63 263 91 HOH HOH B . J 5 HOH 64 264 124 HOH HOH B . J 5 HOH 65 265 57 HOH HOH B . J 5 HOH 66 266 144 HOH HOH B . J 5 HOH 67 267 37 HOH HOH B . J 5 HOH 68 268 26 HOH HOH B . J 5 HOH 69 269 83 HOH HOH B . J 5 HOH 70 270 51 HOH HOH B . J 5 HOH 71 271 22 HOH HOH B . J 5 HOH 72 272 45 HOH HOH B . J 5 HOH 73 273 146 HOH HOH B . J 5 HOH 74 274 24 HOH HOH B . J 5 HOH 75 275 43 HOH HOH B . J 5 HOH 76 276 84 HOH HOH B . J 5 HOH 77 277 138 HOH HOH B . J 5 HOH 78 278 95 HOH HOH B . J 5 HOH 79 279 97 HOH HOH B . J 5 HOH 80 280 99 HOH HOH B . J 5 HOH 81 281 132 HOH HOH B . J 5 HOH 82 282 143 HOH HOH B . J 5 HOH 83 283 137 HOH HOH B . J 5 HOH 84 284 141 HOH HOH B . J 5 HOH 85 285 119 HOH HOH B . J 5 HOH 86 286 131 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? dev_4788 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DIALS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? DIALS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 8I3Z _cell.details ? _cell.formula_units_Z ? _cell.length_a 81.271 _cell.length_a_esd ? _cell.length_b 81.271 _cell.length_b_esd ? _cell.length_c 61.855 _cell.length_c_esd ? _cell.volume 353817.373 _cell.volume_esd ? _cell.Z_PDB 6 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8I3Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ;P 32 2" ; _symmetry.space_group_name_H-M 'P 32 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 8I3Z _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 3.52 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 65 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '2.0 M Ammonium Sulfate' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 293 # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER2 X 4M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2023-01-08 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97918 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'SSRF BEAMLINE BL02U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97918 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL02U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate 25.48 _reflns.entry_id 8I3Z _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.67 _reflns.d_resolution_low 46.67 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 27501 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 98.99 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 16.0 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 22.6 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all 0.014 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.055 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 1.67 _reflns_shell.d_res_low 1.71 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.8 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1875 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all 0.387 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.892 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.962 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 44.31 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8I3Z _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.67 _refine.ls_d_res_low 30.59 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 27460 _refine.ls_number_reflns_R_free 1369 _refine.ls_number_reflns_R_work 26091 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.01 _refine.ls_percent_reflns_R_free 4.99 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1688 _refine.ls_R_factor_R_free 0.1856 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1679 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.34 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 8HB1 _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 22.9938 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.1723 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 1.67 _refine_hist.d_res_low 30.59 _refine_hist.number_atoms_solvent 146 _refine_hist.number_atoms_total 1372 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1178 _refine_hist.pdbx_number_atoms_ligand 48 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0124 ? 1366 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.8902 ? 2124 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0853 ? 280 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0210 ? 59 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 17.0440 ? 662 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 1.67 1.73 . . 129 2421 93.07 . . . . 0.2319 . . . . . . . . . . . 0.2753 'X-RAY DIFFRACTION' 1.73 1.80 . . 126 2531 97.58 . . . . 0.2255 . . . . . . . . . . . 0.2585 'X-RAY DIFFRACTION' 1.80 1.88 . . 134 2629 99.86 . . . . 0.2226 . . . . . . . . . . . 0.2344 'X-RAY DIFFRACTION' 1.88 1.98 . . 154 2563 99.89 . . . . 0.2069 . . . . . . . . . . . 0.2246 'X-RAY DIFFRACTION' 1.98 2.10 . . 110 2638 100.00 . . . . 0.2074 . . . . . . . . . . . 0.2314 'X-RAY DIFFRACTION' 2.10 2.27 . . 139 2628 99.82 . . . . 0.2018 . . . . . . . . . . . 0.1982 'X-RAY DIFFRACTION' 2.27 2.49 . . 164 2587 99.89 . . . . 0.2103 . . . . . . . . . . . 0.2103 'X-RAY DIFFRACTION' 2.49 2.85 . . 140 2654 99.96 . . . . 0.2100 . . . . . . . . . . . 0.2262 'X-RAY DIFFRACTION' 2.86 3.60 . . 117 2681 99.93 . . . . 0.1513 . . . . . . . . . . . 0.2245 'X-RAY DIFFRACTION' 3.60 30.59 . . 156 2759 100.00 . . . . 0.1266 . . . . . . . . . . . 0.1258 # _struct.entry_id 8I3Z _struct.title 'Crystal structure of NAD-II riboswitch (two strands) with NMN at 1.67 angstrom' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8I3Z _struct_keywords.text 'Aptamer, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 4 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 5 ? J N N 5 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 8I3Z 8I3Z ? 1 ? 1 2 PDB 8I3Z 8I3Z ? 2 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 8I3Z A 1 ? 24 ? 8I3Z 1 ? 24 ? 1 24 2 2 8I3Z B 1 ? 31 ? 8I3Z 26 ? 56 ? 26 56 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 4660 ? 1 MORE -49 ? 1 'SSA (A^2)' 9550 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A U 20 "O3'" ? ? ? 1_555 A CBV 21 P ? ? A U 20 A CBV 21 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale2 covale one ? A CBV 21 "O3'" ? ? ? 1_555 A G 22 P ? ? A CBV 21 A G 22 1_555 ? ? ? ? ? ? ? 1.593 ? ? metalc1 metalc ? ? A G 15 OP1 ? ? ? 1_555 C NA . NA ? ? A G 15 A NA 101 1_555 ? ? ? ? ? ? ? 2.832 ? ? metalc2 metalc ? ? A A 16 OP1 ? ? ? 1_555 C NA . NA ? ? A A 16 A NA 101 1_555 ? ? ? ? ? ? ? 2.913 ? ? metalc3 metalc ? ? B A 31 OP2 ? ? ? 1_555 H NA . NA ? ? B A 56 B NA 105 5_565 ? ? ? ? ? ? ? 2.735 ? ? hydrog1 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 12 N3 ? ? A G 2 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 12 O2 ? ? A G 2 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 12 N4 ? ? A G 2 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N2 ? ? ? 1_555 B U 15 O4 ? ? A G 2 B U 40 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog5 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 11 N3 ? ? A A 3 B U 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 11 O4 ? ? A A 3 B U 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B A 18 N1 ? ? A G 4 B A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog11 hydrog ? ? A G 4 N3 ? ? ? 1_555 B A 18 N6 ? ? A G 4 B A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 9 N1 ? ? A C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 9 O6 ? ? A C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 9 N2 ? ? A C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 5 O2 ? ? ? 1_555 B A 20 N6 ? ? A C 5 B A 45 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog16 hydrog ? ? A G 6 N2 ? ? ? 1_555 A U 8 O4 ? ? A G 6 A U 8 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog17 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 22 N7 ? ? A U 7 B A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog21 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 22 N6 ? ? A U 7 B A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog22 hydrog ? ? A U 8 O4 ? ? ? 1_555 A G 15 N1 ? ? A U 8 A G 15 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog23 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 25 N1 ? ? A U 8 B A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog24 hydrog ? ? A U 8 O2 ? ? ? 1_555 B A 25 N6 ? ? A U 8 B A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog25 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 29 N1 ? ? A C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 29 O6 ? ? A C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 29 N2 ? ? A C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 28 N1 ? ? A U 12 B A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 28 N6 ? ? A U 12 B A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 27 N1 ? ? A C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 27 O6 ? ? A C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 27 N2 ? ? A C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 14 N3 ? ? ? 1_555 B G 26 N1 ? ? A C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 14 N4 ? ? ? 1_555 B G 26 O6 ? ? A C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 14 O2 ? ? ? 1_555 B G 26 N2 ? ? A C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 15 N2 ? ? ? 1_555 B A 6 N1 ? ? A G 15 B A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog37 hydrog ? ? A G 15 N3 ? ? ? 1_555 B A 6 N6 ? ? A G 15 B A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog38 hydrog ? ? A A 17 N1 ? ? ? 1_555 B G 26 N2 ? ? A A 17 B G 51 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog39 hydrog ? ? A G 19 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 19 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 19 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A U 20 N3 ? ? ? 1_555 B A 4 N1 ? ? A U 20 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A U 20 O4 ? ? ? 1_555 B A 4 N6 ? ? A U 20 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A CBV 21 N3 ? ? ? 1_555 B G 3 N1 ? ? A CBV 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A CBV 21 N4 ? ? ? 1_555 B G 3 O6 ? ? A CBV 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A CBV 21 O2 ? ? ? 1_555 B G 3 N2 ? ? A CBV 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A G 22 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A G 22 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A G 22 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 22 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A C 23 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A C 23 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A C 23 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 23 B G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? B C 7 O2 ? ? ? 1_555 B A 22 N6 ? ? B C 32 B A 47 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog54 hydrog ? ? B G 8 N1 ? ? ? 1_555 B C 21 O2 ? ? B G 33 B C 46 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog55 hydrog ? ? B G 9 N2 ? ? ? 1_555 B A 20 N1 ? ? B G 34 B A 45 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog56 hydrog ? ? B C 10 O2 ? ? ? 1_555 B A 19 N6 ? ? B C 35 B A 44 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog57 hydrog ? ? B U 11 O2 ? ? ? 1_555 B A 17 N6 ? ? B U 36 B A 42 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? hydrog58 hydrog ? ? B C 12 O2 ? ? ? 1_555 B A 16 N6 ? ? B C 37 B A 41 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog59 hydrog ? ? B A 23 N6 ? ? ? 1_555 B G 26 O6 ? ? B A 48 B G 51 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id OP1 _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id A _pdbx_struct_conn_angle.ptnr1_label_comp_id G _pdbx_struct_conn_angle.ptnr1_label_seq_id 15 _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id A _pdbx_struct_conn_angle.ptnr1_auth_comp_id G _pdbx_struct_conn_angle.ptnr1_auth_seq_id 15 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id NA _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id C _pdbx_struct_conn_angle.ptnr2_label_comp_id NA _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id A _pdbx_struct_conn_angle.ptnr2_auth_comp_id NA _pdbx_struct_conn_angle.ptnr2_auth_seq_id 101 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id OP1 _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id A _pdbx_struct_conn_angle.ptnr3_label_comp_id A _pdbx_struct_conn_angle.ptnr3_label_seq_id 16 _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id A _pdbx_struct_conn_angle.ptnr3_auth_comp_id A _pdbx_struct_conn_angle.ptnr3_auth_seq_id 16 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 99.7 _pdbx_struct_conn_angle.value_esd ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 "HO3'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 CBV _pdbx_validate_close_contact.auth_seq_id_1 21 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 P _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 G _pdbx_validate_close_contact.auth_seq_id_2 22 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 0.69 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 P A A 3 ? ? "O5'" A A 3 ? ? 1.521 1.593 -0.072 0.010 N 2 1 "O5'" A A 3 ? ? "C5'" A A 3 ? ? 1.340 1.420 -0.080 0.009 N 3 1 N1 A C 10 ? ? C6 A C 10 ? ? 1.329 1.367 -0.038 0.006 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N1 A A 1 ? ? C2 A A 1 ? ? N3 A A 1 ? ? 132.44 129.30 3.14 0.50 N 2 1 C2 A A 1 ? ? N3 A A 1 ? ? C4 A A 1 ? ? 105.24 110.60 -5.36 0.50 N 3 1 C5 A A 1 ? ? C6 A A 1 ? ? N1 A A 1 ? ? 114.26 117.70 -3.44 0.50 N 4 1 "O5'" A A 3 ? ? P A A 3 ? ? OP1 A A 3 ? ? 92.72 105.70 -12.98 0.90 N 5 1 "O5'" A A 3 ? ? P A A 3 ? ? OP2 A A 3 ? ? 119.00 110.70 8.30 1.20 N 6 1 "C5'" A A 3 ? ? "C4'" A A 3 ? ? "C3'" A A 3 ? ? 104.35 115.20 -10.85 1.40 N 7 1 C2 A A 3 ? ? N3 A A 3 ? ? C4 A A 3 ? ? 107.21 110.60 -3.39 0.50 N 8 1 C5 A A 3 ? ? N7 A A 3 ? ? C8 A A 3 ? ? 100.34 103.90 -3.56 0.50 N 9 1 C5 A U 7 ? ? C6 A U 7 ? ? N1 A U 7 ? ? 119.49 122.70 -3.21 0.50 N 10 1 "O5'" A G 11 ? ? P A G 11 ? ? OP2 A G 11 ? ? 96.03 105.70 -9.67 0.90 N 11 1 C2 A G 11 ? ? N3 A G 11 ? ? C4 A G 11 ? ? 108.16 111.90 -3.74 0.50 N 12 1 N1 A G 11 ? ? C6 A G 11 ? ? O6 A G 11 ? ? 116.15 119.90 -3.75 0.60 N 13 1 C5 A G 11 ? ? C6 A G 11 ? ? O6 A G 11 ? ? 134.34 128.60 5.74 0.60 N 14 1 N3 B C 46 ? ? C2 B C 46 ? ? O2 B C 46 ? ? 126.21 121.90 4.31 0.70 N 15 1 N1 B A 47 ? ? C6 B A 47 ? ? N6 B A 47 ? ? 122.87 118.60 4.27 0.60 N 16 1 N1 B A 50 ? ? C2 B A 50 ? ? N3 B A 50 ? ? 125.46 129.30 -3.84 0.50 N 17 1 C2 B G 52 ? ? N3 B G 52 ? ? C4 B G 52 ? ? 108.36 111.90 -3.54 0.50 N 18 1 N3 B G 52 ? ? C4 B G 52 ? ? C5 B G 52 ? ? 131.72 128.60 3.12 0.50 N 19 1 "O5'" B A 55 ? ? P B A 55 ? ? OP2 B A 55 ? ? 99.99 105.70 -5.71 0.90 N # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 228 ? I HOH . 2 1 A HOH 233 ? I HOH . 3 1 A HOH 257 ? I HOH . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y,x-y,z+2/3 3 -x+y,-x,z+1/3 4 x-y,-y,-z+1/3 5 -x,-x+y,-z+2/3 6 y,x,-z # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[1][1]_esd _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][2]_esd _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[1][3]_esd _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[2][2]_esd _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.T[2][3]_esd _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[3][3]_esd _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[1][1]_esd _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][2]_esd _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[1][3]_esd _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[2][2]_esd _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.L[2][3]_esd _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[3][3]_esd _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][1]_esd _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][2]_esd _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[1][3]_esd _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][1]_esd _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][2]_esd _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][3]_esd _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][1]_esd _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][2]_esd _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[3][3]_esd 1 'X-RAY DIFFRACTION' ? refined 12.4154432582 30.4367222802 7.56218770956 0.218757936224 ? -0.0134856629029 ? 0.00454901153499 ? 0.366567318749 ? 0.0759263121433 ? 0.41802486842 ? 0.367398978405 ? -0.127033748724 ? -0.740245320816 ? 1.30466650576 ? -0.910148412791 ? 1.92299990924 ? -0.117901302633 ? -0.0854538442045 ? -0.252224746103 ? -0.135899145667 ? -0.0220312665768 ? -0.200419598487 ? 0.2407975454 ? -0.495353464225 ? 0.119265136739 ? 2 'X-RAY DIFFRACTION' ? refined -5.24848714166 34.5113957657 17.26129716 0.189576199996 ? -0.0427958020912 ? 0.00886418751066 ? 0.314666231285 ? 0.0367867100676 ? 0.349984466386 ? 6.78640907304 ? -1.37975717845 ? -1.30771209161 ? 2.87104272611 ? -0.863396440915 ? 2.10399810629 ? -0.0165466645158 ? 0.175926124537 ? 0.61540564574 ? -0.0153312568177 ? 0.0148835631368 ? -0.387225560418 ? -0.0830267959194 ? 0.203758845605 ? 0.00277729171385 ? 3 'X-RAY DIFFRACTION' ? refined -8.13645866664 23.8773721797 6.53214811091 0.312100989053 ? 0.0284402484126 ? -0.041611893053 ? 0.582756105218 ? -0.105493520453 ? 0.308100503058 ? 1.72700790856 ? 1.62902100673 ? -0.613460986181 ? 2.48025051789 ? 0.110475708359 ? 6.64808338258 ? -0.0993611575716 ? 0.914180546906 ? -0.476900776956 ? -0.525333896884 ? 0.031556033593 ? 0.0208542942661 ? 0.416801903112 ? 0.0634705451807 ? 0.0383652870631 ? 4 'X-RAY DIFFRACTION' ? refined -4.07411849736 14.3227397694 -16.2033833459 1.30490021937 ? 0.208803962166 ? -0.0724204393124 ? 1.97874842886 ? -0.63377993759 ? 0.796704169957 ? 7.69771014752 ? 2.48711591721 ? -0.30571704726 ? 7.9454946844 ? -1.47408389509 ? 0.544694120308 ? -0.23018362076 ? -0.129618050383 ? -0.492296649291 ? -1.40705090067 ? 0.0341992062006 ? -0.413318937116 ? 0.585529012536 ? 1.39655194452 ? 0.112679408096 ? 5 'X-RAY DIFFRACTION' ? refined 2.4471057924 30.0518150596 4.21403677582 0.308358049173 ? -0.0238401225422 ? 0.0324328625328 ? 0.710358267587 ? -0.0156266739216 ? 0.482918740513 ? 7.20905883908 ? 0.0941174858546 ? 2.57036550181 ? 0.729157763798 ? 0.184330457036 ? 3.90180335227 ? 0.351575923105 ? 1.22731020511 ? -0.722288720097 ? -0.14101936503 ? 0.066594203966 ? -0.408122739848 ? 0.483227243082 ? 0.0766069068075 ? -0.40658261257 ? 6 'X-RAY DIFFRACTION' ? refined 19.9609838159 29.0964968963 12.1381706166 0.248864580555 ? 0.0421564110974 ? -0.00544237047723 ? 0.416296209765 ? 0.135381495937 ? 0.495892249496 ? 4.04731298834 ? 0.808852480655 ? -0.488968241787 ? 0.210940545968 ? -0.0695297329535 ? 3.36949047313 ? -0.153997518815 ? -0.439109818606 ? -0.184746324576 ? 0.0736900071325 ? 0.200812713349 ? -0.273787660635 ? 0.357576665545 ? 0.33659199861 ? -0.0318959584924 ? 7 'X-RAY DIFFRACTION' ? refined 1.70233355945 35.8045125926 15.8531518757 0.207204234748 ? -0.0775850731021 ? 0.00514055711162 ? 0.334986003919 ? 0.120184590789 ? 0.360370346489 ? 7.16192316577 ? -0.557429294898 ? -0.794801414179 ? 2.30962656535 ? 0.733307635732 ? 1.94984188824 ? -0.0324377369201 ? -0.179547693314 ? 0.788660737045 ? 0.0813600721237 ? -0.0715957807346 ? -0.276798659381 ? -0.0132975096954 ? 0.103650831764 ? 0.191140631951 ? 8 'X-RAY DIFFRACTION' ? refined -19.2656633744 28.2852569143 11.6854680351 0.209539082164 ? -0.0463031274183 ? -0.0267565262722 ? 0.43383209083 ? 0.0181498222561 ? 0.255807392697 ? 2.15603259994 ? 0.999198341033 ? 1.32784756196 ? 5.53085744212 ? -0.131472695386 ? 2.69749821896 ? 0.0268840591856 ? 0.687692475678 ? 0.101079255106 ? 0.0517518286451 ? -0.0369002685267 ? 0.515797818793 ? 0.329572326517 ? -0.450467160286 ? 0.0561458297046 ? # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_PDB_ins_code _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_PDB_ins_code _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 A ? A 1 ? A ? A 5 ? ? ;chain 'A' and (resid 1 through 5 ) ; 2 'X-RAY DIFFRACTION' 2 A ? A 6 ? A ? A 10 ? ? ;chain 'A' and (resid 6 through 10 ) ; 3 'X-RAY DIFFRACTION' 3 A ? A 11 ? A ? A 23 ? ? ;chain 'A' and (resid 11 through 23 ) ; 4 'X-RAY DIFFRACTION' 4 A ? A 24 ? A ? A 24 ? ? ;chain 'A' and (resid 24 through 24 ) ; 5 'X-RAY DIFFRACTION' 5 B ? B 27 ? B ? B 36 ? ? ;chain 'B' and (resid 27 through 36 ) ; 6 'X-RAY DIFFRACTION' 6 B ? B 37 ? B ? B 41 ? ? ;chain 'B' and (resid 37 through 41 ) ; 7 'X-RAY DIFFRACTION' 7 B ? B 42 ? B ? B 51 ? ? ;chain 'B' and (resid 42 through 51 ) ; 8 'X-RAY DIFFRACTION' 8 B ? B 52 ? B ? B 56 ? ? ;chain 'B' and (resid 52 through 56 ) ; # _pdbx_entry_details.entry_id 8I3Z _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 CBV O3P O N N 73 CBV P P N N 74 CBV O1P O N N 75 CBV O2P O N N 76 CBV "O5'" O N N 77 CBV "C5'" C N N 78 CBV "C4'" C N R 79 CBV "O4'" O N N 80 CBV "C3'" C N S 81 CBV "O3'" O N N 82 CBV "C2'" C N R 83 CBV "O2'" O N N 84 CBV "C1'" C N R 85 CBV N1 N N N 86 CBV C2 C N N 87 CBV O2 O N N 88 CBV N3 N N N 89 CBV C4 C N N 90 CBV N4 N N N 91 CBV C5 C N N 92 CBV C6 C N N 93 CBV BR BR N N 94 CBV HO3P H N N 95 CBV HO1P H N N 96 CBV "H5'1" H N N 97 CBV "H5'2" H N N 98 CBV "H4'" H N N 99 CBV "H3'" H N N 100 CBV "HO3'" H N N 101 CBV "H2'" H N N 102 CBV "HO2'" H N N 103 CBV "H1'" H N N 104 CBV HN41 H N N 105 CBV HN42 H N N 106 CBV H6 H N N 107 G OP3 O N N 108 G P P N N 109 G OP1 O N N 110 G OP2 O N N 111 G "O5'" O N N 112 G "C5'" C N N 113 G "C4'" C N R 114 G "O4'" O N N 115 G "C3'" C N S 116 G "O3'" O N N 117 G "C2'" C N R 118 G "O2'" O N N 119 G "C1'" C N R 120 G N9 N Y N 121 G C8 C Y N 122 G N7 N Y N 123 G C5 C Y N 124 G C6 C N N 125 G O6 O N N 126 G N1 N N N 127 G C2 C N N 128 G N2 N N N 129 G N3 N N N 130 G C4 C Y N 131 G HOP3 H N N 132 G HOP2 H N N 133 G "H5'" H N N 134 G "H5''" H N N 135 G "H4'" H N N 136 G "H3'" H N N 137 G "HO3'" H N N 138 G "H2'" H N N 139 G "HO2'" H N N 140 G "H1'" H N N 141 G H8 H N N 142 G H1 H N N 143 G H21 H N N 144 G H22 H N N 145 HOH O O N N 146 HOH H1 H N N 147 HOH H2 H N N 148 NA NA NA N N 149 NMN O3P O N N 150 NMN P P N N 151 NMN O1P O N N 152 NMN O2P O N N 153 NMN O5R O N N 154 NMN C5R C N N 155 NMN C4R C N R 156 NMN O4R O N N 157 NMN C3R C N S 158 NMN O3R O N N 159 NMN C2R C N R 160 NMN O2R O N N 161 NMN C1R C N R 162 NMN N1 N Y N 163 NMN C2 C Y N 164 NMN C3 C Y N 165 NMN C7 C N N 166 NMN O7 O N N 167 NMN N7 N N N 168 NMN C4 C Y N 169 NMN C5 C Y N 170 NMN C6 C Y N 171 NMN H1PO H N N 172 NMN H2PO H N N 173 NMN H5R1 H N N 174 NMN H5R2 H N N 175 NMN H4RC H N N 176 NMN H3RC H N N 177 NMN H3RO H N N 178 NMN H2RC H N N 179 NMN H2RO H N N 180 NMN H1RC H N N 181 NMN HC2 H N N 182 NMN HN71 H N N 183 NMN HN72 H N N 184 NMN HC4 H N N 185 NMN HC5 H N N 186 NMN HC6 H N N 187 U OP3 O N N 188 U P P N N 189 U OP1 O N N 190 U OP2 O N N 191 U "O5'" O N N 192 U "C5'" C N N 193 U "C4'" C N R 194 U "O4'" O N N 195 U "C3'" C N S 196 U "O3'" O N N 197 U "C2'" C N R 198 U "O2'" O N N 199 U "C1'" C N R 200 U N1 N N N 201 U C2 C N N 202 U O2 O N N 203 U N3 N N N 204 U C4 C N N 205 U O4 O N N 206 U C5 C N N 207 U C6 C N N 208 U HOP3 H N N 209 U HOP2 H N N 210 U "H5'" H N N 211 U "H5''" H N N 212 U "H4'" H N N 213 U "H3'" H N N 214 U "HO3'" H N N 215 U "H2'" H N N 216 U "HO2'" H N N 217 U "H1'" H N N 218 U H3 H N N 219 U H5 H N N 220 U H6 H N N 221 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 CBV O3P P sing N N 76 CBV O3P HO3P sing N N 77 CBV P O1P sing N N 78 CBV P O2P doub N N 79 CBV P "O5'" sing N N 80 CBV O1P HO1P sing N N 81 CBV "O5'" "C5'" sing N N 82 CBV "C5'" "C4'" sing N N 83 CBV "C5'" "H5'1" sing N N 84 CBV "C5'" "H5'2" sing N N 85 CBV "C4'" "O4'" sing N N 86 CBV "C4'" "C3'" sing N N 87 CBV "C4'" "H4'" sing N N 88 CBV "O4'" "C1'" sing N N 89 CBV "C3'" "O3'" sing N N 90 CBV "C3'" "C2'" sing N N 91 CBV "C3'" "H3'" sing N N 92 CBV "O3'" "HO3'" sing N N 93 CBV "C2'" "O2'" sing N N 94 CBV "C2'" "C1'" sing N N 95 CBV "C2'" "H2'" sing N N 96 CBV "O2'" "HO2'" sing N N 97 CBV "C1'" N1 sing N N 98 CBV "C1'" "H1'" sing N N 99 CBV N1 C2 sing N N 100 CBV N1 C6 sing N N 101 CBV C2 O2 doub N N 102 CBV C2 N3 sing N N 103 CBV N3 C4 doub N N 104 CBV C4 N4 sing N N 105 CBV C4 C5 sing N N 106 CBV N4 HN41 sing N N 107 CBV N4 HN42 sing N N 108 CBV C5 C6 doub N N 109 CBV C5 BR sing N N 110 CBV C6 H6 sing N N 111 G OP3 P sing N N 112 G OP3 HOP3 sing N N 113 G P OP1 doub N N 114 G P OP2 sing N N 115 G P "O5'" sing N N 116 G OP2 HOP2 sing N N 117 G "O5'" "C5'" sing N N 118 G "C5'" "C4'" sing N N 119 G "C5'" "H5'" sing N N 120 G "C5'" "H5''" sing N N 121 G "C4'" "O4'" sing N N 122 G "C4'" "C3'" sing N N 123 G "C4'" "H4'" sing N N 124 G "O4'" "C1'" sing N N 125 G "C3'" "O3'" sing N N 126 G "C3'" "C2'" sing N N 127 G "C3'" "H3'" sing N N 128 G "O3'" "HO3'" sing N N 129 G "C2'" "O2'" sing N N 130 G "C2'" "C1'" sing N N 131 G "C2'" "H2'" sing N N 132 G "O2'" "HO2'" sing N N 133 G "C1'" N9 sing N N 134 G "C1'" "H1'" sing N N 135 G N9 C8 sing Y N 136 G N9 C4 sing Y N 137 G C8 N7 doub Y N 138 G C8 H8 sing N N 139 G N7 C5 sing Y N 140 G C5 C6 sing N N 141 G C5 C4 doub Y N 142 G C6 O6 doub N N 143 G C6 N1 sing N N 144 G N1 C2 sing N N 145 G N1 H1 sing N N 146 G C2 N2 sing N N 147 G C2 N3 doub N N 148 G N2 H21 sing N N 149 G N2 H22 sing N N 150 G N3 C4 sing N N 151 HOH O H1 sing N N 152 HOH O H2 sing N N 153 NMN O3P P doub N N 154 NMN P O1P sing N N 155 NMN P O2P sing N N 156 NMN P O5R sing N N 157 NMN O1P H1PO sing N N 158 NMN O2P H2PO sing N N 159 NMN O5R C5R sing N N 160 NMN C5R C4R sing N N 161 NMN C5R H5R1 sing N N 162 NMN C5R H5R2 sing N N 163 NMN C4R O4R sing N N 164 NMN C4R C3R sing N N 165 NMN C4R H4RC sing N N 166 NMN O4R C1R sing N N 167 NMN C3R O3R sing N N 168 NMN C3R C2R sing N N 169 NMN C3R H3RC sing N N 170 NMN O3R H3RO sing N N 171 NMN C2R O2R sing N N 172 NMN C2R C1R sing N N 173 NMN C2R H2RC sing N N 174 NMN O2R H2RO sing N N 175 NMN C1R N1 sing N N 176 NMN C1R H1RC sing N N 177 NMN N1 C2 doub Y N 178 NMN N1 C6 sing Y N 179 NMN C2 C3 sing Y N 180 NMN C2 HC2 sing N N 181 NMN C3 C7 sing N N 182 NMN C3 C4 doub Y N 183 NMN C7 O7 doub N N 184 NMN C7 N7 sing N N 185 NMN N7 HN71 sing N N 186 NMN N7 HN72 sing N N 187 NMN C4 C5 sing Y N 188 NMN C4 HC4 sing N N 189 NMN C5 C6 doub Y N 190 NMN C5 HC5 sing N N 191 NMN C6 HC6 sing N N 192 U OP3 P sing N N 193 U OP3 HOP3 sing N N 194 U P OP1 doub N N 195 U P OP2 sing N N 196 U P "O5'" sing N N 197 U OP2 HOP2 sing N N 198 U "O5'" "C5'" sing N N 199 U "C5'" "C4'" sing N N 200 U "C5'" "H5'" sing N N 201 U "C5'" "H5''" sing N N 202 U "C4'" "O4'" sing N N 203 U "C4'" "C3'" sing N N 204 U "C4'" "H4'" sing N N 205 U "O4'" "C1'" sing N N 206 U "C3'" "O3'" sing N N 207 U "C3'" "C2'" sing N N 208 U "C3'" "H3'" sing N N 209 U "O3'" "HO3'" sing N N 210 U "C2'" "O2'" sing N N 211 U "C2'" "C1'" sing N N 212 U "C2'" "H2'" sing N N 213 U "O2'" "HO2'" sing N N 214 U "C1'" N1 sing N N 215 U "C1'" "H1'" sing N N 216 U N1 C2 sing N N 217 U N1 C6 sing N N 218 U C2 O2 doub N N 219 U C2 N3 sing N N 220 U N3 C4 sing N N 221 U N3 H3 sing N N 222 U C4 O4 doub N N 223 U C4 C5 sing N N 224 U C5 C6 doub N N 225 U C5 H5 sing N N 226 U C6 H6 sing N N 227 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8I3Z 'double helix' 8I3Z 'a-form double helix' 8I3Z 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 2 1_555 B C 12 1_555 -0.085 -0.142 0.036 1.481 -14.390 0.313 1 A_G2:C37_B A 2 ? B 37 ? 19 1 1 A A 3 1_555 B U 11 1_555 -0.043 -0.162 0.350 6.493 -10.933 5.479 2 A_A3:U36_B A 3 ? B 36 ? 20 1 1 A G 4 1_555 B C 10 1_555 -0.213 -0.123 -0.038 -6.086 -14.802 -1.769 3 A_G4:C35_B A 4 ? B 35 ? 19 1 1 A C 5 1_555 B G 9 1_555 0.350 -0.183 0.071 -0.918 -5.245 -1.482 4 A_C5:G34_B A 5 ? B 34 ? 19 1 1 B C 21 1_555 B G 8 1_555 3.435 1.195 0.071 6.736 -15.530 51.200 5 B_C46:G33_B B 46 ? B 33 ? ? 5 1 A U 7 1_555 B A 22 1_555 -0.846 3.716 -0.710 8.299 -2.828 -69.980 6 A_U7:A47_B A 7 ? B 47 ? 23 3 1 A U 8 1_555 B A 25 1_555 -0.131 -1.235 -0.367 -2.243 -9.447 -167.469 7 A_U8:A50_B A 8 ? B 50 ? 21 2 1 B A 6 1_555 A G 15 1_555 -3.312 3.883 0.062 11.482 -1.426 73.178 8 B_A31:G15_A B 31 ? A 15 ? 10 6 1 B G 26 1_555 A C 14 1_555 -0.101 -0.098 -0.027 1.116 -7.773 2.807 9 B_G51:C14_A B 51 ? A 14 ? 19 1 1 B G 27 1_555 A C 13 1_555 -0.296 -0.152 -0.164 -0.071 -10.740 -1.689 10 B_G52:C13_A B 52 ? A 13 ? 19 1 1 B A 28 1_555 A U 12 1_555 0.147 -0.044 0.081 11.813 1.118 4.248 11 B_A53:U12_A B 53 ? A 12 ? 20 1 1 B G 29 1_555 A C 10 1_555 -0.245 -0.185 0.035 8.471 6.157 -2.964 12 B_G54:C10_A B 54 ? A 10 ? 19 1 1 A G 19 1_555 B C 5 1_555 -0.424 -0.189 -0.360 -16.223 -5.817 -0.759 13 A_G19:C30_B A 19 ? B 30 ? 19 1 1 A U 20 1_555 B A 4 1_555 0.436 -0.019 0.395 1.692 -12.458 -1.843 14 A_U20:A29_B A 20 ? B 29 ? 20 1 1 A CBV 21 1_555 B G 3 1_555 0.325 -0.011 0.276 0.412 -12.906 4.509 15 A_CBV21:G28_B A 21 ? B 28 ? 19 1 1 A G 22 1_555 B C 2 1_555 -1.837 -0.116 -0.157 -14.023 -12.611 5.464 16 A_G22:C27_B A 22 ? B 27 ? 19 1 1 A C 23 1_555 B G 1 1_555 1.031 -0.751 0.776 11.349 -4.489 -8.232 17 A_C23:G26_B A 23 ? B 26 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 2 1_555 B C 12 1_555 A A 3 1_555 B U 11 1_555 0.153 -1.088 3.171 -2.028 2.524 32.234 -2.375 -0.615 3.064 4.531 3.642 32.392 1 AA_G2A3:U36C37_BB A 2 ? B 37 ? A 3 ? B 36 ? 1 A A 3 1_555 B U 11 1_555 A G 4 1_555 B C 10 1_555 -0.422 -1.377 3.556 2.901 7.225 32.331 -3.662 1.242 3.135 12.745 -5.118 33.231 2 AA_A3G4:C35U36_BB A 3 ? B 36 ? A 4 ? B 35 ? 1 A G 4 1_555 B C 10 1_555 A C 5 1_555 B G 9 1_555 0.699 -1.684 3.203 1.984 3.290 32.402 -3.547 -0.914 3.058 5.869 -3.540 32.623 3 AA_G4C5:G34C35_BB A 4 ? B 35 ? A 5 ? B 34 ? 1 A C 5 1_555 B G 9 1_555 B C 21 1_555 B G 8 1_555 -2.601 1.585 3.416 7.276 1.687 79.146 1.194 2.234 3.235 1.321 -5.699 79.440 4 AB_C5C46:G33G34_BB A 5 ? B 34 ? B 46 ? B 33 ? 1 B C 21 1_555 B G 8 1_555 A U 7 1_555 B A 22 1_555 -1.513 -3.172 3.438 -0.187 -2.201 -25.336 7.843 -3.491 3.145 5.006 -0.426 -25.431 5 BA_C46U7:A47G33_BB B 46 ? B 33 ? A 7 ? B 47 ? 1 A U 7 1_555 B A 22 1_555 A U 8 1_555 B A 25 1_555 -0.429 0.009 3.284 3.552 2.524 85.690 -0.050 0.396 3.267 1.855 -2.610 85.780 6 AA_U7U8:A50A47_BB A 7 ? B 47 ? A 8 ? B 50 ? 1 A U 8 1_555 B A 25 1_555 B A 6 1_555 A G 15 1_555 5.089 -0.467 1.521 172.391 -37.434 -91.486 0.194 2.361 -2.449 18.825 86.693 -177.494 7 AB_U8A31:G15A50_AB A 8 ? B 50 ? B 31 ? A 15 ? 1 B A 6 1_555 A G 15 1_555 B G 26 1_555 A C 14 1_555 -2.538 -2.358 -0.719 114.378 -129.345 7.595 -1.421 1.060 0.038 -67.238 -59.458 172.679 8 BB_A31G51:C14G15_AA B 31 ? A 15 ? B 51 ? A 14 ? 1 B G 26 1_555 A C 14 1_555 B G 27 1_555 A C 13 1_555 -1.238 -2.417 3.201 -3.118 7.133 26.055 -6.765 1.925 2.588 15.390 6.728 27.174 9 BB_G51G52:C13C14_AA B 51 ? A 14 ? B 52 ? A 13 ? 1 B G 27 1_555 A C 13 1_555 B A 28 1_555 A U 12 1_555 0.532 -1.253 3.013 -4.314 1.084 32.467 -2.389 -1.615 2.878 1.927 7.671 32.762 10 BB_G52A53:U12C13_AA B 52 ? A 13 ? B 53 ? A 12 ? 1 B A 28 1_555 A U 12 1_555 B G 29 1_555 A C 10 1_555 2.407 -1.344 3.044 7.112 15.659 49.526 -2.485 -2.298 2.825 18.074 -8.208 52.248 11 BB_A53G54:C10U12_AA B 53 ? A 12 ? B 54 ? A 10 ? 1 A G 19 1_555 B C 5 1_555 A U 20 1_555 B A 4 1_555 0.281 -1.500 2.902 -4.327 4.826 30.568 -3.561 -1.218 2.577 9.026 8.093 31.232 12 AA_G19U20:A29C30_BB A 19 ? B 30 ? A 20 ? B 29 ? 1 A U 20 1_555 B A 4 1_555 A CBV 21 1_555 B G 3 1_555 0.184 -1.762 3.220 2.781 0.138 32.654 -3.146 0.145 3.217 0.244 -4.935 32.769 13 AA_U20CBV21:G28A29_BB A 20 ? B 29 ? A 21 ? B 28 ? 1 A CBV 21 1_555 B G 3 1_555 A G 22 1_555 B C 2 1_555 0.765 -2.126 3.366 7.064 9.451 17.644 -9.374 0.609 2.119 27.210 -20.339 21.200 14 AA_CBV21G22:C27G28_BB A 21 ? B 28 ? A 22 ? B 27 ? 1 A G 22 1_555 B C 2 1_555 A C 23 1_555 B G 1 1_555 -1.497 -1.221 2.903 -14.637 -3.288 44.995 -1.261 0.707 3.289 -4.162 18.527 47.306 15 AA_G22C23:G26C27_BB A 22 ? B 27 ? A 23 ? B 26 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Natural Science Foundation of China (NSFC)' China 32171191 1 'Cancer Research UK' 'United Kingdom' A18604 2 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id NMN _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id NMN _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 8HB1 _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'P 32 2 1' _space_group.name_Hall ;P 32 2" ; _space_group.IT_number 154 _space_group.crystal_system trigonal _space_group.id 1 # _atom_sites.entry_id 8I3Z _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.012305 _atom_sites.fract_transf_matrix[1][2] 0.007104 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.014208 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.016167 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source BR ? ? 25.79822 9.11301 ? ? 1.35700 25.34896 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? NA ? ? 9.38062 1.54875 ? ? 3.38349 72.32734 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_